Skip to main content
SpringerLink
Log in

Molecular characterization of segments S7 to S10 of a southern rice black-streaked dwarf virus isolate from maize in northern China

  • Published:
Virologica Sinica

Abstract

Southern rice black-streaked dwarf virus (SRBSDV) is a novel Fijivirus prevalent in rice in southern and central China, and northern Vietnam. Its genome has 10 segments of double-stranded RNA named S1 to S10 according to their size. An isolate of SRBSDV, JNi4, was obtained from naturally infected maize plants from Ji’ning, Shandong province, in the 2008 maize season. Segments S7 to S10 of JNi4 share nucleotide identities of 72.6%–73.1%, 72.3%–73%, 73.9%–74.5% and 77.3%–79%, respectively, with corresponding segments of Rice black-streaked dwarf virus isolates, and identities of 99.7%, 99.1%–99.7%, 98.9%–99.5%, and 98.6%–99.2% with those of SRBSDV isolates HN and GD. JNi4 forms a separate branch with GD and HN in the phylogenetic trees constructed with genomic sequences of S7 to S10. These results confirm the proposed taxonomic status of SRBSDV as a distinct species of the genus Fijivirus and indicate that JNi4 is an isolate of SRBSDV. Shandong is so far the northernmost region where SRBSDV is found in China.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Similar content being viewed by others

References

  1. Anzola J V, Xu Z K, Asamizu T, et al. 1987. Segment-specific inverted repeats found adjacent to conserved terminal sequences in wound tumor virus genome and defective interfering RNAs. Proc Nat Acad Sci USA, 84: 8301–8305.

    Article  CAS  PubMed  Google Scholar 

  2. Bao Y X, Xu X Y, Wang J Q, et al. 2007. Analysis of the atmospheric dynamical backgrounds for the great immigration events of white back planthoppper (Sogatella furcifera). Acta Ecol Sin, 27: 4527–4535.

    Google Scholar 

  3. Chen J, Zhu Q Q, Yuan C Y, et al. 2008. Molecular characterization of Rice black-streaked dwarf virus isolates causing maize rough dwarf disease in Shandong. Acta Phytopathol Sin, 38: 540–543.

    Google Scholar 

  4. Distéfano A J, Conci L R, Muñoz Hidalgo M, et al. 2002. Sequence analysis of genome segments S4 and S8 of Mal de Río Cuarto virus (MRCV): evidence that the virus should be a separate Fijivirus species. Arch Virol, 147: 1699–1709.

    Article  PubMed  Google Scholar 

  5. Distefano A J, Hopp H E, del Vas M. 2005. Sequence analysis of genome segments S5 and S10 of Mal de Rio Cuarto virus (Fijivirus, Reoviridae). Arch Virol, 150: 1241–1248.

    Article  CAS  PubMed  Google Scholar 

  6. Fang S, Yu J, Feng J, et al. 2001. Identification of rice black-streaked dwarf fijivirus in maize with rough dwarf disease in China. Arch Virol, 146: 167–170.

    Article  CAS  PubMed  Google Scholar 

  7. Guzman F A, Distefano A J, Arneodo J D, et al. 2007. Sequencing of the bicistronic genome segments S7 and S9 of Mal de Rio Cuarto virus (Fijivirus, Reoviridae) completes the genome of this virus. Arch Virol, 152: 565–573.

    Article  CAS  PubMed  Google Scholar 

  8. Harding R M, Burns P, Geijskes R J, et al. 2006. Molecular analysis of Fiji disease virus segments 2, 4 and 7 completes the genome sequence. Virus Genes, 32: 43–47.

    Article  CAS  PubMed  Google Scholar 

  9. Isogai M, Uyeda I, Lindsten K. 1998. Taxonomic characteristics of fijiviruses based on nucleotide sequences of the oat sterile dwarf virus genome. J Gen Virol, 79: 1479–1485.

    CAS  PubMed  Google Scholar 

  10. Kumar S, Nei M, Dudley J, et al. 2008. MEGA: a biologist-centric software for evolutionary analysis of DNA and protein sequences. Brief Bioinform, 9: 299–306.

    Article  CAS  PubMed  Google Scholar 

  11. Larkin M A, Blackshields G, Brown N P, et al. 2007. Clustal W and Clustal X version 2.0. Bioinformatics, 23: 2947–2948.

    Article  PubMed  Google Scholar 

  12. Marzachì C, Antoniazzi S, d’Aquilio M, et al. 1996. The double-stranded RNA genome of maize rough dwarf fijivirus contains both mono and dicistronic segments. Eur J Plant Pathol, 102: 601–605.

    Article  Google Scholar 

  13. Marzachi C, Boccardo G, Nuss D L. 1991. Cloning of the maize rough dwarf virus genome: molecular confirmation of the plant-reovirus classification scheme and identification of two large nonoverlapping coding domains within a single genomic segment. Virology, 180: 518–526.

    Article  CAS  PubMed  Google Scholar 

  14. McQualter R B, Burns P, Smith G R, et al. 2004. Molecular analysis of Fiji disease virus genome segments 5, 6, 8 and 10. Arch Virol, 149: 713–721.

    Article  CAS  PubMed  Google Scholar 

  15. Milne R G, del Vas M, Harding R M, et al. 2005. Genus Fijivirus. in: Fauquet CM, Mayo MA, Maniloff J, Desselberger U, Ball LA (eds) Virus Taxomony: Classification and nomenclature of viruses. Eighth Report of the International Committee on the Taxonomy of Viruses. Elsevier Academic Press, San Diego, pp 534–542.

    Google Scholar 

  16. Nakashima N, Koizumi M, Watanabe H, et al. 1996. Complete nucleotide sequence of the Nilaparvata lugens reovirus: a putative member of the genus Fijivirus. J Gen Virol, 77: 139–146.

    Article  CAS  PubMed  Google Scholar 

  17. Nakashima N, Noda H. 1994. Nucleotide sequence of Nilaparvata lugens reovirus genome segment S8 coding for the major outer capsid protein. J Gen Virol, 75: 2803–2806.

    Article  CAS  PubMed  Google Scholar 

  18. Noda H, Nakashima N, Omura T. 1994. Cloning of the Nilaparvata lugens reovirus genome: conserved terminal nucleotide sequences and nucleotide sequence of genome segment S10. J Gen Virol, 75: 221–225.

    Article  CAS  PubMed  Google Scholar 

  19. Soo H M, Handley J A, Maugeri M M, et al. 1998. Molecular characterization of Fiji disease fijivirus genome segment 9. J Gen Virol, 79: 3155–61.

    CAS  PubMed  Google Scholar 

  20. Tamura K, Dudley J, Nei M, et al. 2007. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol, 24: 1596–1599.

    Article  CAS  PubMed  Google Scholar 

  21. Thompson J D, Higgins D G, Gibson T J. 1994. improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucl Acids Res, 22: 4673–4680.

    Article  CAS  PubMed  Google Scholar 

  22. Wang Q, Yang J, Zhou G H, et al. 2010. The complete genome sequence of two isolates of southern rice black-streaked dwarf virus, a new member of the genus Fijivirus. J Phytopathol, 158: 733–737

    Article  Google Scholar 

  23. Wang Z H, Fang S G, Xu J L, et al. 2003. Sequence analysis of the complete genome of rice black-streaked dwarf virus isolated from maize with rough dwarf disease. Virus Genes, 27: 163–168.

    Article  PubMed  Google Scholar 

  24. Yu X Q, Lan Y F, Wang H Y, et al. 2007. The complete genomic sequence of Tobacco vein banding mosaic virus and its similarities with other potyviruses. Virus Genes, 35: 801–806.

    Article  PubMed  Google Scholar 

  25. Zhang H M, Chen J P, Adams M J. 2001. Molecular characterisation of segments 1 to 6 of Rice black-streaked dwarf virus from China provides the complete genome. Arch Virol, 146: 2331–2339.

    Article  CAS  PubMed  Google Scholar 

  26. Zhang H M, Chen J P, Lei J L, et al. 2001. Sequence analysis shows that a dwarfing disease on rice, wheat and maize in China is caused by rice black-streaked dwarf virus. Eur J Plant Pathol, 107: 563–567.

    Article  CAS  Google Scholar 

  27. Zhang H M, Yang J, Chen J P, et al. 2008. A black-streaked dwarf disease on rice in China is caused by a novel fijivirus. Arch Virol, 153: 1893–1898.

    Article  CAS  PubMed  Google Scholar 

  28. Zhou G H, Wen J J, Cai D J, et al. 2008. Southern rice black-streaked dwarf virus: A new proposed Fijivirus species in the family Reoviridae. Chin Sci Bull, 53: 3677–3685.

    Article  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Shandong Key Laboratory for Agricultural Microbiology, College of Plant Protection, Shandong Agricultural University, Tai’an, Shandong, 271018, China

    Xiao Yin, Fei-fei Xu, Fang-qiang Zheng & Xiang-dong Li

  2. College of Agronomy, Shandong Agricultural University, Tai’an, Shandong, 271018, China

    Bao-shen Liu & Chun-qing Zhang

Authors
  1. Xiao Yin
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Fei-fei Xu
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Fang-qiang Zheng
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Xiang-dong Li
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Bao-shen Liu
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Chun-qing Zhang
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Xiang-dong Li.

Additional information

Foundation items: National Natural Science Foundation of China (30971895, 31011130031); Special Research Funds for the Doctoral Program of Higher Education (20080434006); Grants from Ministry of Science and Technology (2009ZX08003-014B) and Shandong province (2009GG10009021); Modern maize industrial system of Shandong province.

These authors contributed equally.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Yin, X., Xu, Ff., Zheng, Fq. et al. Molecular characterization of segments S7 to S10 of a southern rice black-streaked dwarf virus isolate from maize in northern China. Virol. Sin. 26, 47–53 (2011). https://doi.org/10.1007/s12250-011-3170-9

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s12250-011-3170-9

Key words

Search

Navigation